Whole-genome sequencing and analysis of Streptomyces sampsonii KJ40

Abstract:

[Background] Streptomyces sampsonii KJ40 is an actinomycete with functions of disease prevention and promoting plant growth, it has the potential as a biological pesticide. However, there is no relevant study in the genome of S. sampsonii until now, limiting the research of its functional genes, metabolites synthesis pathway and comparative genomics etc. [Objective] To analyze the genome information of the S. sampsonii KJ40 strain, and to research the mechanism of functions of the strain, and its secondary metabolite genes. [Methods] The whole genome of KJ40 strain was sequenced on the Illumina HiSeq platform, and then sequenced reads were assembled, the genes were predicted, the gene annotation, secondary metabolite biosynthesis and synteny were also analyzed with softwares. [Results] In the whole genome, 9 scaffolds and 578 contigs were obtained. The total length was 7 261 502 bp, the average GC content was 73.41%. It contained 6 605 genes, 1 260 tandem repeat sequences, 804 minisatellite DNAs, 67 microsatellite DNAs, 90 tRNAs, 9 rRNAs, and 19 sRNAs. Among them, 2 429, 3 765, 2 890, 6 063 and 1 911 genes were able to annotate in COG, GO, KEGG, NR and Swiss-Prot databases respectively. 21 secondary metabolite biosynthetic gene clusters were also obtained. The sequencing data from this article are available in the GenBank database (accession number LORI00000000). There were 1 711 proteins clustered among S. sampsonii KJ40, Streptomyces coelicolor A3(2) and Streptomyces griseus subsp. griseus NBRC 13350. The analysis of synteny indicated that genome rearrangement and translocation happened among these genomes. [Conclusion] Our results show the genome information of KJ40 strain, it gives evidence that KJ40 is linked to disease prevention and promoting plant growth, and provided reference for understanding secondary metabolic synthesis pathway of Streptomyces, which is of great significance to the future research of S. sampsonii.